| REPORT DATE | OUTBREAK ID | PROJECT NAME | PREPARED BY |
|---|---|---|---|
| 20250303 | test | test | S. Chill |
The figures shown here were generated using sequence data processed with the ODH AR data analysis pipeline. If you have questions about this report please contact Samantha Chill. The following databases are utilized to generate the data within this report:
ResFinder database: v2.1.0 including until 2023-04-12 commit f46d8fc
MLST database: static db generated from PubMLST.org 2023-05-02
Phylogenetic trees visualize the relatedness and genetic diversity of samples. Closely related samples will generally share a recent common ancestor. Three different types of trees are presented.
Core Genes Identified: 30
Total Genes Identified: 11684
There were 4 samples analyzed and 2 samples passed quality control thresholds, while 2 failed. Failing samples included: ODHL_sample1 | ODHL_sample3. An additional 3 samples were used for reference (ODHL_ref, REF).
The information included in this report should only be used to support infection prevention measures. This report should not be used to guide treatment decisions, nor should it be included in the patient record. Whole-genome sequencing analysis is a rapidly evolving technology. Whole-genome sequencing and single nucleotide variant analysis will continue to be adjusted and refined over time due to the varied nature of bacterial genomes, limitations on available reference genomes and continual assessment of the inclusion of mobile genetic elements in this analysis. These results represent the most advanced method currently available for genome comparisons.
A phylogeny tree is used to illustrate relationships where a simulation of continuous trait evolution is illustrated (Brownian motion BM model). The “trait value” refers to the values of the simulated continuous trait for each tip (or node). The length of each branch is representative of lineage relatedness.
